AlphaPulldown2 – A General Pipeline for High-Throughput Structural Modeling DOI Creative Commons
Dmitry Molodenskiy, Valentin Maurer, Dingquan Yu

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 3, 2024

Abstract AlphaPulldown2 streamlines protein structural modeling by automating workflows, improving code adaptability, and optimizing data management for large-scale applications. It introduces an automated Snakemake pipeline, compressed storage, support additional backends like UniFold AlphaLink2, a range of other improvements. These upgrades make versatile platform predicting both binary interactions complex multi-unit assemblies. Availability is freely available at https://github.com/KosinskiLab/AlphaPulldown .

Language: Английский

Salivary Biomarkers in Breast Cancer: From Salivaomics to Salivaoncoomics DOI Creative Commons
Lyudmila V. Bel’skaya,

Elena I. Dyachenko

Frontiers in Bioscience-Landmark, Journal Year: 2024, Volume and Issue: 29(7)

Published: July 17, 2024

Saliva is a promising biological fluid for the diagnosis and monitoring of diseases, including breast cancer. To study composition saliva, complex "omics" technologies used: genomics, transcriptomics, proteomics, metabolomics microbiomics. In this review, we systematized all known in their application to saliva analysis cancer order understand how complete picture provided by combination different areas research identify missing links. It has been shown that studies are chaotic unsystematic. Inconsistency sample sizes high heterogeneity were identified. The main tasks need be solved harmonious development salivaomics new direction-"salivaonkoomics" formulated. Thus, it necessary systematize unify biomarkers within each area "omics", size its homogeneity, list methods approaches, biomarkers, reproducibility results, ability transfer results other samples. important expand number components adding (for example, spectralomics, etc.), as well studying relationships between (interactomics). All together will allow not only but also many pathologies qualitatively level.

Language: Английский

Citations

2
Structural characteristics and anti-tumor activity of alcohol-precipitated polysaccharides from Cordyceps militaris under different ethanol concentrations DOI
Keyao Dai,

Ruo-Han Wang,

Lan Mu

et al.

International Journal of Biological Macromolecules, Journal Year: 2024, Volume and Issue: 278, P. 134784 - 134784

Published: Aug. 14, 2024

Language: Английский

Citations

1
Recent Advances in Mass Spectrometry-based Protein Interactome Studies DOI Creative Commons
Shaowen Wu, Sheng Zhang, Chunming Liu

et al.

Molecular & Cellular Proteomics, Journal Year: 2024, Volume and Issue: unknown, P. 100887 - 100887

Published: Nov. 1, 2024

Language: Английский

Citations

1
AlphaPulldown2 – A General Pipeline for High-Throughput Structural Modeling DOI Creative Commons
Dmitry Molodenskiy, Valentin Maurer, Dingquan Yu

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 3, 2024

Abstract AlphaPulldown2 streamlines protein structural modeling by automating workflows, improving code adaptability, and optimizing data management for large-scale applications. It introduces an automated Snakemake pipeline, compressed storage, support additional backends like UniFold AlphaLink2, a range of other improvements. These upgrades make versatile platform predicting both binary interactions complex multi-unit assemblies. Availability is freely available at https://github.com/KosinskiLab/AlphaPulldown .

Language: Английский

Citations

0